If more than 50 genes/sequences are provided as input, then the associated running time can take some time. Therefore it is advisable to provide an email-address in case you are running the Interactive Phylogenetics Module with more than 50 genes. After processing you will be send an email with a link to the created phylogenetic tree.
The selection modi are exclusive: please choose either Gene selection or Species selection.
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ) $local_species = 'acertr' $disabled = '' $selected = ''include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0;
$disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":"";
$selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":"";
$num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0;
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ) $local_species = 'acertr' $disabled = '' $selected = ''
include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ) $local_species = 'ach' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ) $local_species = 'ach' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ) $local_species = 'aar' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ) $local_species = 'aar' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ) $local_species = 'amhyb' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ) $local_species = 'amhyb' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ) $local_species = 'atr' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ) $local_species = 'atr' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ) $local_species = 'aag' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ) $local_species = 'aag' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ) $local_species = 'aox' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ) $local_species = 'aox' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ) $local_species = 'aly' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ) $local_species = 'aly' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ) $local_species = 'ath' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ) $local_species = 'ath' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ) $local_species = 'arhy' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ) $local_species = 'arhy' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ) $local_species = 'ama' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ) $local_species = 'ama' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ) $local_species = 'bvu' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ) $local_species = 'bvu' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ) $local_species = 'bca' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ) $local_species = 'bca' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ) $local_species = 'bna' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ) $local_species = 'bna' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ) $local_species = 'bol' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ) $local_species = 'bol' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ) $local_species = 'bra' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ) $local_species = 'bra' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ) $local_species = 'camsi' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ) $local_species = 'camsi' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ) $local_species = 'cansat' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ) $local_species = 'cansat' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ) $local_species = 'cru' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ) $local_species = 'cru' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ) $local_species = 'can' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ) $local_species = 'can' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ) $local_species = 'chi' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ) $local_species = 'chi' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ) $local_species = 'cpa' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ) $local_species = 'cpa' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ) $local_species = 'cfa' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ) $local_species = 'cfa' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ) $local_species = 'cil' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ) $local_species = 'cil' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ) $local_species = 'cde' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ) $local_species = 'cde' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ) $local_species = 'cbr' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ) $local_species = 'cbr' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ) $local_species = 'cqu' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ) $local_species = 'cqu' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ) $local_species = 'cre' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ) $local_species = 'cre' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ) $local_species = 'car' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ) $local_species = 'car' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ) $local_species = 'cla' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ) $local_species = 'cla' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ) $local_species = 'ccl' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ) $local_species = 'ccl' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ) $local_species = 'ccan' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ) $local_species = 'ccan' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ) $local_species = 'col' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ) $local_species = 'col' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ) $local_species = 'cav' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ) $local_species = 'cav' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ) $local_species = 'cme' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ) $local_species = 'cme' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ) $local_species = 'csa' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ) $local_species = 'csa' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ) $local_species = 'dca' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ) $local_species = 'dca' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ) $local_species = 'din' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ) $local_species = 'din' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ) $local_species = 'dzi' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ) $local_species = 'dzi' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ) $local_species = 'eca' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ) $local_species = 'eca' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ) $local_species = 'egut' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ) $local_species = 'egut' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ) $local_species = 'egr' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ) $local_species = 'egr' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ) $local_species = 'esa' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ) $local_species = 'esa' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ) $local_species = 'fve' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ) $local_species = 'fve' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ) $local_species = 'fan' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ) $local_species = 'fan' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ) $local_species = 'gma' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ) $local_species = 'gma' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ) $local_species = 'ghi' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ) $local_species = 'ghi' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ) $local_species = 'gra' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ) $local_species = 'gra' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ) $local_species = 'han' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ) $local_species = 'han' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ) $local_species = 'hma' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ) $local_species = 'hma' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ) $local_species = 'lsa' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ) $local_species = 'lsa' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ) $local_species = 'lonja' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ) $local_species = 'lonja' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ) $local_species = 'lja' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ) $local_species = 'lja' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ) $local_species = 'lal' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ) $local_species = 'lal' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ) $local_species = 'mbi' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ) $local_species = 'mbi' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ) $local_species = 'mdo' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ) $local_species = 'mdo' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ) $local_species = 'mes' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ) $local_species = 'mes' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ) $local_species = 'mpo' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ) $local_species = 'mpo' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ) $local_species = 'mtr' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ) $local_species = 'mtr' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ) $local_species = 'mco' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ) $local_species = 'mco' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ) $local_species = 'nnu' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ) $local_species = 'nnu' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ) $local_species = 'nta' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ) $local_species = 'nta' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ) $local_species = 'oeu' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ) $local_species = 'oeu' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ) $local_species = 'osa' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ) $local_species = 'osa' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ) $local_species = 'pso' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ) $local_species = 'pso' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ) $local_species = 'pax' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ) $local_species = 'pax' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ) $local_species = 'pvu' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ) $local_species = 'pvu' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ) $local_species = 'ppa' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ) $local_species = 'ppa' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ) $local_species = 'psa' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ) $local_species = 'psa' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ) $local_species = 'ptr' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ) $local_species = 'ptr' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ) $local_species = 'pco' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ) $local_species = 'pco' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ) $local_species = 'ppe' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ) $local_species = 'ppe' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ) $local_species = 'pgr' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ) $local_species = 'pgr' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ) $local_species = 'qlo' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ) $local_species = 'qlo' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ) $local_species = 'rsi' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ) $local_species = 'rsi' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ) $local_species = 'rch' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ) $local_species = 'rch' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ) $local_species = 'sbr' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ) $local_species = 'sbr' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ) $local_species = 'sbo' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ) $local_species = 'sbo' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ) $local_species = 'shi' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ) $local_species = 'shi' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ) $local_species = 'spa' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ) $local_species = 'spa' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ) $local_species = 'sed' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ) $local_species = 'sed' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ) $local_species = 'smo' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ) $local_species = 'smo' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ) $local_species = 'sun' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ) $local_species = 'sun' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ) $local_species = 'sgi' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ) $local_species = 'sgi' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ) $local_species = 'sci' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ) $local_species = 'sci' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ) $local_species = 'sly' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ) $local_species = 'sly' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ) $local_species = 'spe' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ) $local_species = 'spe' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ) $local_species = 'stu' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ) $local_species = 'stu' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ) $local_species = 'sas' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ) $local_species = 'sas' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ) $local_species = 'tha' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ) $local_species = 'tha' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ) $local_species = 'tca' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ) $local_species = 'tca' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ) $local_species = 'tpr' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ) $local_species = 'tpr' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ) $local_species = 'twi' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ) $local_species = 'twi' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ) $local_species = 'tar' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ) $local_species = 'tar' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ) $local_species = 'ugi' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ) $local_species = 'ugi' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ) $local_species = 'vma' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ) $local_species = 'vma' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ) $local_species = 'vpl' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ) $local_species = 'vpl' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ) $local_species = 'vmu' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ) $local_species = 'vmu' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ) $local_species = 'vvi' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ) $local_species = 'vvi' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) $local_species = 'zma' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ), 'gf_id' => 'HOM05D001013', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001013' ), 'data_identifier' => 'HOM05D001013', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001013', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03620' => 'bna', 'A04p20620' => 'bna', 'A04p20630' => 'bna', 'A06p22420' => 'bna', 'A06p22440' => 'bna', 'A06p22500' => 'bna', 'A06p26650' => 'bna', 'A09p01610' => 'bna', 'A09p01640' => 'bna', 'A09p01660' => 'bna', 'A10p02990' => 'bna', 'A10p19070' => 'bna', 'Aa31LG1G13780' => 'aar', 'Aa31LG1G13810' => 'aar', 'Aa31LG1G20290' => 'aar', 'Aa31LG2G15640' => 'aar', 'Aa31LG5G8560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1590' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.138' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.207' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.324' => 'aag', 'Actinidia12897' => 'ach', 'Actinidia16323' => 'ach', 'Ah.06g194350' => 'amhyb', 'Ah.08g222520' => 'amhyb', 'Ah.09g234820' => 'amhyb', 'Ah.15g099160' => 'amhyb', 'AL1G14260' => 'aly', 'AL4G20900' => 'aly', 'AL5G21530' => 'aly', 'AL6G32530' => 'aly', 'AL6G50970' => 'aly', 'AL7G13020' => 'aly', 'AL7G16310' => 'aly', 'Aqoxy1G00274' => 'aox', 'Aqoxy1G00558' => 'aox', 'arahy.Tifrunner.gnm1.ann1.34FQ5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX6ZD6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I21QA9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZEE0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5338L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XRM29C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z05M3L' => 'arhy', 'AT1G02590' => 'ath', 'AT1G04580' => 'ath', 'AT2G27150' => 'ath', 'AT3G04390' => 'ath', 'AT3G43600' => 'ath', 'AT4G31196' => 'ath', 'AT4G34890' => 'ath', 'AT4G34900' => 'ath', 'AT4G37500' => 'ath', 'AT5G20960' => 'ath', 'ATR0136G001' => 'atr', 'ATR0317G077' => 'atr', 'ATR0605G208' => 'atr', 'ATR0697G128' => 'atr', 'ATR0697G277' => 'atr', 'ATR1126G083' => 'atr', 'ATR1153G011' => 'atr', 'ATR1153G019' => 'atr', 'ATR1153G027' => 'atr', 'ATR1153G032' => 'atr', 'ATR1153G102' => 'atr', 'Atru.chr3.2746' => 'acertr', 'Atru.chr3.3024' => 'acertr', 'Atru.chr3.3025' => 'acertr', 'Atru.chr3.3026' => 'acertr', 'Atru.chr3.3027' => 'acertr', 'Atru.chr3.3030' => 'acertr', 'AUR62000107' => 'cqu', 'AUR62001590' => 'cqu', 'AUR62019282' => 'cqu', 'AUR62019283' => 'cqu', 'AUR62019284' => 'cqu', 'AUR62020190' => 'cqu', 'AUR62027573' => 'cqu', 'AUR62029261' => 'cqu', 'AUR62029262' => 'cqu', 'BcaB01g01220' => 'bca', 'BcaB01g02071' => 'bca', 'BcaB01g02072' => 'bca', 'BcaB04g17722' => 'bca', 'BcaB05g22795' => 'bca', 'BcaB06g28117' => 'bca', 'BcaC01g02093' => 'bca', 'BcaC01g02216' => 'bca', 'BcaC02g08278' => 'bca', 'BcaC03g13819' => 'bca', 'BcaC03g13821' => 'bca', 'BcaC04g19494' => 'bca', 'BcaC04g24043' => 'bca', 'BcaNung00646' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01240' => 'bna', 'BolC1t00384H' => 'bol', 'BolC2t07087H' => 'bol', 'BolC2t07088H' => 'bol', 'BolC2t07089H' => 'bol', 'BolC3t19119H' => 'bol', 'BolC4t27172H' => 'bol', 'BolC5t29057H' => 'bol', 'BolC5t32065H' => 'bol', 'BolC9t53105H' => 'bol', 'BolC9t58373H' => 'bol', 'BolSC21t60234H' => 'bol', 'BraA01t00348Z' => 'bra', 'BraA02t05607Z' => 'bra', 'BraA04t17636Z' => 'bra', 'BraA06t25325Z' => 'bra', 'BraA06t25599Z' => 'bra', 'BraA09t35819Z' => 'bra', 'BraA10t42570Z' => 'bra', 'BraA10t43986Z' => 'bra', 'C01p03910' => 'bna', 'C02p10550' => 'bna', 'C02p38900' => 'bna', 'C03p68600' => 'bna', 'C04p56410' => 'bna', 'C05p02750' => 'bna', 'C05p33410' => 'bna', 'C09p01710' => 'bna', 'C09p55090' => 'bna', 'CAN.G295.2' => 'can', 'CAN.G327.12' => 'can', 'CAN.G410.23' => 'can', 'CAN.G410.24' => 'can', 'CAN.G410.25' => 'can', 'CAN.G410.26' => 'can', 'CAN.G439.12' => 'can', 'CAN.G439.13' => 'can', 'CAN.G439.14' => 'can', 'CAN.G439.16' => 'can', 'CAN.G439.17' => 'can', 'CAN.G439.26' => 'can', 'CAN.G439.8' => 'can', 'CAN.G439.9' => 'can', 'CAN.G447.10' => 'can', 'CAN.G794.6' => 'can', 'CANSAT01G2178' => 'cansat', 'CANSAT54G1296' => 'cansat', 'CANSAT54G2003' => 'cansat', 'CANSAT54G2448' => 'cansat', 'CARHR003930' => 'chi', 'CARHR119530' => 'chi', 'CARHR191880' => 'chi', 'CARHR243170' => 'chi', 'CARHR250380' => 'chi', 'CARHR287370' => 'chi', 'Carub.0001s0380' => 'cru', 'Carub.0004s0769' => 'cru', 'Carub.0005s0932' => 'cru', 'Carub.0005s0947' => 'cru', 'Carub.0006s1928' => 'cru', 'Carub.0007s0540' => 'cru', 'Ca_01292_v3' => 'car', 'Ca_06132_v3' => 'car', 'Ca_06134_v3' => 'car', 'CBR_g30957' => 'cbr', 'CBR_g30958' => 'cbr', 'Cc00_g06140' => 'ccan', 'Cc00_g06150' => 'ccan', 'Cc00_g06160' => 'ccan', 'Cc00_g06170' => 'ccan', 'Cc00_g06180' => 'ccan', 'Cc01_g08420' => 'ccan', 'Cc01_g08430' => 'ccan', 'Cc01_g08440' => 'ccan', 'Cc04_g10210' => 'ccan', 'Cc04_g10220' => 'ccan', 'Cc07_g19600' => 'ccan', 'Cc07_g19610' => 'ccan', 'CDE05G1887' => 'cde', 'CDE05G3370' => 'cde', 'CDE06G1283' => 'cde', 'CDE06G1290' => 'cde', 'CDE06G2611' => 'cde', 'CDE07G0351' => 'cde', 'CDE07G1002' => 'cde', 'Cfa009756' => 'cfa', 'Cfa010233' => 'cfa', 'Cfa025145' => 'cfa', 'Ciclev10014051m.g' => 'ccl', 'Ciclev10027682m.g' => 'ccl', 'Ciclev10027684m.g' => 'ccl', 'Ciclev10027685m.g' => 'ccl', 'CiPaw.04G138000' => 'cil', 'CiPaw.14G119800' => 'cil', 'ClCG02G024320' => 'cla', 'ClCG03G013290' => 'cla', 'COL.COLO4_00585' => 'col', 'COL.COLO4_09889' => 'col', 'COL.COLO4_24880' => 'col', 'COL.COLO4_24881' => 'col', 'COL.COLO4_25331' => 'col', 'COL.COLO4_25337' => 'col', 'COL.COLO4_25339' => 'col', 'COL.COLO4_25347' => 'col', 'Cpa.g.sc103.92' => 'cpa', 'Cpa.g.sc103.93' => 'cpa', 'Cpa.g.sc103.94' => 'cpa', 'Cpa.g.sc103.95' => 'cpa', 'Cpa.g.sc84.69' => 'cpa', 'Cre11.g467688' => 'cre', 'Cre12.g545101' => 'cre', 'CsaV3_1G042760' => 'csa', 'CsaV3_4G017450' => 'csa', 'CsaV3_4G017460' => 'csa', 'CSS0021836' => 'camsi', 'CSS0025436' => 'camsi', 'CSS0033412' => 'camsi', 'CSS0047222' => 'camsi', 'CSS0047721' => 'camsi', 'CSS0049552' => 'camsi', 'DCAR_002067' => 'dca', 'DCAR_022905' => 'dca', 'DCAR_022906' => 'dca', 'DCAR_031841' => 'dca', 'Dinv32837' => 'din', 'Dinv36267' => 'din', 'Duzib150G0808' => 'dzi', 'Duzib168G0053' => 'dzi', 'Duzib168G1502' => 'dzi', 'Duzib168G1728' => 'dzi', 'Duzib168G2056' => 'dzi', 'Duzib168G2378' => 'dzi', 'Duzib170G0402' => 'dzi', 'ECA232G2326' => 'eca', 'ECA233G5652' => 'eca', 'ECA233G5782' => 'eca', 'ECA238G2169' => 'eca', 'ECA238G2654' => 'eca', 'EL10Ac4g10130' => 'bvu', 'EL10Ac4g10132' => 'bvu', 'EL10Ac4g10154' => 'bvu', 'EL10Ac4g10156' => 'bvu', 'EL10Ac4g10158' => 'bvu', 'EL10Ac4g10159' => 'bvu', 'EL10Ac4g10161' => 'bvu', 'EL10Ac4g10268' => 'bvu', 'EL10Ac4g10284' => 'bvu', 'EL10Ac7g16249' => 'bvu', 'Eucgr.J00610' => 'egr', 'Eucgr.J00780' => 'egr', 'Eucgr.J00782' => 'egr', 'Eucgr.L00273' => 'egr', 'FAN11G1955' => 'fan', 'FAN11G2909' => 'fan', 'FAN16G1085' => 'fan', 'FAN21G1111' => 'fan', 'FAN21G2353' => 'fan', 'FAN25G0736' => 'fan', 'FAN25G0972' => 'fan', 'FAN25G2450' => 'fan', 'FvH4_3g26980' => 'fve', 'FvH4_3g29000' => 'fve', 'Glyma.02G272200' => 'gma', 'Glyma.02G272301' => 'gma', 'Glyma.02G272400' => 'gma', 'Glyma.13G340300' => 'gma', 'Glyma.14G045100' => 'gma', 'Glyma.15G034000' => 'gma', 'Gohir.A02G060000' => 'ghi', 'Gohir.A05G076500' => 'ghi', 'Gohir.A05G076550' => 'ghi', 'Gohir.A05G076700' => 'ghi', 'Gohir.A07G114700' => 'ghi', 'Gohir.A09G104100' => 'ghi', 'Gohir.A09G114800' => 'ghi', 'Gohir.D05G079300' => 'ghi', 'Gohir.D05G079500' => 'ghi', 'Gohir.D07G118800' => 'ghi', 'Gohir.D09G100800' => 'ghi', 'Gohir.D09G111500' => 'ghi', 'Gorai.001G127800' => 'gra', 'Gorai.006G118300' => 'gra', 'Gorai.006G129200' => 'gra', 'Gorai.009G080800' => 'gra', 'Gorai.009G081000' => 'gra', 'GSVIVG01025282001' => 'vvi', 'GSVIVG01025879001' => 'vvi', 'GSVIVG01025881001' => 'vvi', 'GSVIVG01025882001' => 'vvi', 'GSVIVG01025883001' => 'vvi', 'GSVIVG01037549001' => 'vvi', 'HanXRQChr00c0036g0571221' => 'han', 'HanXRQChr07g0197511' => 'han', 'HanXRQChr07g0203921' => 'han', 'HanXRQChr13g0400761' => 'han', 'HanXRQChr13g0400791' => 'han', 'Haze_23121' => 'cav', 'Haze_23625' => 'cav', 'Hma1.2p1_0218F.1_g092380' => 'hma', 'Hma1.2p1_0861F.1_g229750' => 'hma', 'Hma1.2p1_0861F.1_g229780' => 'hma', 'Hma1.2p1_0861F.1_g229790' => 'hma', 'Hma1.2p1_1413F.1_g281850' => 'hma', 'Hma1.2p1_1695F.1_g298030' => 'hma', 'HPP92_013949' => 'vpl', 'HPP92_015649' => 'vpl', 'HPP92_015652' => 'vpl', 'HPP92_015653' => 'vpl', 'HPP92_023576' => 'vpl', 'Hund18818' => 'sun', 'Hund22038' => 'sun', 'Lalb_Chr04g0249791' => 'lal', 'Lalb_Chr04g0249801' => 'lal', 'Lalb_Chr17g0347421' => 'lal', 'Lalb_Chr24g0397071' => 'lal', 'Lj2A632G19' => 'lonja', 'Lj2A859G10' => 'lonja', 'Lj2A880G54' => 'lonja', 'Lj2A885T28' => 'lonja', 'Lj2A887G22' => 'lonja', 'Lj2A890T23' => 'lonja', 'Lj2C858G1' => 'lonja', 'Lj2C880T8' => 'lonja', 'Lj2C881G3' => 'lonja', 'Lj2C882G0' => 'lonja', 'Lj2C882T2' => 'lonja', 'Lj2C884G1' => 'lonja', 'Lj2C884G6' => 'lonja', 'Lj2C885G1' => 'lonja', 'Lj2C885T8' => 'lonja', 'Lj2C886G0' => 'lonja', 'Lj2C887G1' => 'lonja', 'Lj2C888G0' => 'lonja', 'Lj2P887T20' => 'lonja', 'Lj3g0023347' => 'lja', 'LjContig00564g0006606' => 'lja', 'LjContig00564g0007287' => 'lja', 'LjContig00564g0012597' => 'lja', 'Lsat_1_v5_gn_2_97481' => 'lsa', 'Lsat_1_v5_gn_2_97521' => 'lsa', 'Lsat_1_v5_gn_6_28341' => 'lsa', 'Manes.04G051100' => 'mes', 'Manes.04G055244' => 'mes', 'Manes.06G165500' => 'mes', 'Manes.11G105300' => 'mes', 'Mapoly0013s0153' => 'mpo', 'Mapoly0014s0136' => 'mpo', 'Mapoly0018s0024' => 'mpo', 'Mapoly0046s0052' => 'mpo', 'MBI01_g42707_MAGBIO' => 'mbi', 'MBI05_g22664_MAGBIO' => 'mbi', 'MBI05_g22665_MAGBIO' => 'mbi', 'MBI05_g22666_MAGBIO' => 'mbi', 'MBI05_g27783_MAGBIO' => 'mbi', 'MBI05_g32551_MAGBIO' => 'mbi', 'MBI11_g01737_MAGBIO' => 'mbi', 'MBI11_g07708_MAGBIO' => 'mbi', 'MBI11_g25046_MAGBIO' => 'mbi', 'MBI11_g25856_MAGBIO' => 'mbi', 'MCO15G310' => 'mco', 'MD00G1162900' => 'mdo', 'MD03G1162200' => 'mdo', 'MD03G1177200' => 'mdo', 'MD11G1161000' => 'mdo', 'MD11G1178400' => 'mdo', 'MD11G1178500' => 'mdo', 'MD11G1197900' => 'mdo', 'Medtr2g098030' => 'mtr', 'Medtr5g087390' => 'mtr', 'Medtr5g087410' => 'mtr', 'MELO3C014095.2' => 'cme', 'MELO3C014716.2' => 'cme', 'MELO3C014719.2' => 'cme', 'MELO3C015199.2' => 'cme', 'MELO3C016640.2' => 'cme', 'MELO3C031051.2' => 'cme', 'MELO3C031052.2' => 'cme', 'MELO3C031971.2' => 'cme', 'MELO3C034647.2' => 'cme', 'Migut.D00590' => 'egut', 'Migut.D00593' => 'egut', 'Migut.D00722' => 'egut', 'Migut.D00723' => 'egut', 'MSTRG.18423' => 'ama', 'MSTRG.18489' => 'ama', 'MSTRG.21309' => 'ama', 'Nitab4.5_0000157g0170' => 'nta', 'Nitab4.5_0000615g0120' => 'nta', 'Nitab4.5_0000615g0140' => 'nta', 'Nitab4.5_0001504g0120' => 'nta', 'Nitab4.5_0001800g0150' => 'nta', 'Nitab4.5_0005439g0030' => 'nta', 'Nitab4.5_0006994g0020' => 'nta', 'Nitab4.5_0007338g0020' => 'nta', 'Nitab4.5_0008826g0010' => 'nta', 'Nitab4.5_0009566g0010' => 'nta', 'Nitab4.5_0009566g0020' => 'nta', 'Nitab4.5_0011557g0010' => 'nta', 'Nn2g14471' => 'nnu', 'Nn2g14475' => 'nnu', 'Nn2g15465' => 'nnu', 'Nn6g32444' => 'nnu', 'Nn6g32446' => 'nnu', 'Oeu032085.1' => 'oeu', 'Oeu051496.1' => 'oeu', 'Os03g0429800' => 'osa', 'Os03g0790700' => 'osa', 'Os03g0790900' => 'osa', 'Os03g0798101' => 'osa', 'Os07g0164900' => 'osa', 'Os07g0281700' => 'osa', 'Os07g0282300' => 'osa', 'Os07g0282401' => 'osa', 'Os07g0282500' => 'osa', 'Os10g0138100' => 'osa', 'Peaxi162Scf00217g00055' => 'pax', 'Peaxi162Scf00217g00057' => 'pax', 'Peaxi162Scf00217g00412' => 'pax', 'Peaxi162Scf00345g00516' => 'pax', 'Peaxi162Scf00952g00315' => 'pax', 'Peaxi162Scf01427g00007' => 'pax', 'PGR119G0144' => 'pgr', 'PGR119G0568' => 'pgr', 'PGR119G1293' => 'pgr', 'PGSC0003DMG400008710' => 'stu', 'PGSC0003DMG401006826' => 'stu', 'PGSC0003DMG401018708' => 'stu', 'PGSC0003DMG402006826' => 'stu', 'PGSC0003DMG402018708' => 'stu', 'PGSC0003DMG402019668' => 'stu', 'PGSC0003DMG403006826' => 'stu', 'Phvul.008G209900' => 'pvu', 'Phvul.008G210000' => 'pvu', 'Phvul.L009543' => 'pvu', 'Potri.004G191300' => 'ptr', 'Potri.009G054600' => 'ptr', 'Potri.009G153600' => 'ptr', 'Pp3c12_1530' => 'ppa', 'Pp3c19_18920' => 'ppa', 'Pp3c20_16340' => 'ppa', 'Pp3c2_20120' => 'ppa', 'Pp3c5_19220' => 'ppa', 'PRCOL_00001493' => 'pco', 'PRCOL_00006722' => 'pco', 'Prupe.4G245700' => 'ppe', 'Prupe.6G150900' => 'ppe', 'Psat0s2541g0080' => 'psa', 'Psat0s2541g0120' => 'psa', 'Psat0ss3005g0040' => 'psa', 'Psat2g023520' => 'psa', 'Psat2g023560' => 'psa', 'Psat5g286360' => 'psa', 'Psat5g286400' => 'psa', 'PSO104G0131' => 'pso', 'PSO170G1265' => 'pso', 'PSO339G2105' => 'pso', 'PSO339G2827' => 'pso', 'PSO384G0041' => 'pso', 'PSO384G2146' => 'pso', 'PSO384G2289' => 'pso', 'PSO407G0074' => 'pso', 'PSO782G5424' => 'pso', 'QL01p005011' => 'qlo', 'QL01p018694' => 'qlo', 'RcHm_v2.0_Chr5g0049511' => 'rch', 'RcHm_v2.0_Chr5g0051661' => 'rch', 'Rhsim13G0199600' => 'rsi', 'Rhsim13G0222300' => 'rsi', 'Sabra04G0130000' => 'sbr', 'Sabra09G0039900' => 'sbr', 'Sabra09G0121000' => 'sbr', 'SalBow3G4420' => 'sbo', 'SalBow6G7135' => 'sbo', 'Sc06g0004540' => 'sci', 'Sc06g0008570' => 'sci', 'Sc06g0008580' => 'sci', 'Sc06g0008590' => 'sci', 'Sc21g0006540' => 'sci', 'Sc21g0006630' => 'sci', 'Sc24g0002490' => 'sci', 'Sc24g0002500' => 'sci', 'Sed0001761' => 'sed', 'Sed0014521' => 'sed', 'Sed0020130' => 'sed', 'SEGI_03393' => 'sgi', 'SEGI_05737' => 'sgi', 'SEGI_06462' => 'sgi', 'SEGI_08506' => 'sgi', 'SEGI_13255' => 'sgi', 'SEGI_15366' => 'sgi', 'SEGI_15558' => 'sgi', 'SEGI_16165' => 'sgi', 'SEGI_16664' => 'sgi', 'SEGI_17853' => 'sgi', 'SEGI_18325' => 'sgi', 'SEGI_20491' => 'sgi', 'SEGI_21888' => 'sgi', 'SEGI_22026' => 'sgi', 'SEGI_25612' => 'sgi', 'SEGI_25983' => 'sgi', 'SEGI_29865' => 'sgi', 'SEGI_30496' => 'sgi', 'SEGI_30641' => 'sgi', 'SEGI_31041' => 'sgi', 'SEGI_32062' => 'sgi', 'SEGI_32187' => 'sgi', 'SEGI_34431' => 'sgi', 'SGA_v2.0_scaffold247G44871' => 'sas', 'SGA_v2.0_scaffold29G12099' => 'sas', 'SGA_v2.0_scaffold29G12106' => 'sas', 'SGA_v2.0_scaffold29G12116' => 'sas', 'SGA_v2.0_scaffold79G25493' => 'sas', 'SGA_v2.0_scaffold8G04501' => 'sas', 'SHI29743' => 'shi', 'SHI29744' => 'shi', 'SHI29746' => 'shi', 'SMO137G0104' => 'smo', 'SMO137G0288' => 'smo', 'SMO169G0285' => 'smo', 'SMO172G0195' => 'smo', 'SMO202G0031' => 'smo', 'SMO202G0042' => 'smo', 'SMO351G0580' => 'smo', 'Solyc01g009230.4' => 'sly', 'Solyc01g088170.4' => 'sly', 'Solyc01g088180.2' => 'sly', 'Solyc01g088200.4' => 'sly', 'Solyc01g088220.2' => 'sly', 'Solyc01g088230.3' => 'sly', 'Solyc11g065920.2' => 'sly', 'Solyc11g065930.3' => 'sly', 'Solyc11g071580.2' => 'sly', 'Solyc11g071600.2' => 'sly', 'Solyc11g071610.2' => 'sly', 'Solyc11g071620.3' => 'sly', 'Sopen01g004700' => 'spe', 'Sopen01g035050' => 'spe', 'Sopen01g035060' => 'spe', 'Sopen11g025660' => 'spe', 'Sopen11g025670' => 'spe', 'Sopen11g029260' => 'spe', 'Sopen11g029270' => 'spe', 'Sopen11g029280' => 'spe', 'Sopen11g029290' => 'spe', 'Sp1g03420' => 'spa', 'Sp4g09940' => 'spa', 'Sp5g17560' => 'spa', 'Sp6g23560' => 'spa', 'Sp7g32650' => 'spa', 'TAR362G0593' => 'tar', 'TAR622G0681' => 'tar', 'TAR633G0020' => 'tar', 'TAR633G1179' => 'tar', 'TAR633G2280' => 'tar', 'TAR636G1523' => 'tar', 'TAR636G2042' => 'tar', 'THA.LOC104799592' => 'tha', 'THA.LOC104799593' => 'tha', 'THA.LOC104800498' => 'tha', 'THA.LOC104817905' => 'tha', 'Thecc.09G231300' => 'tca', 'Thecc.09G266100' => 'tca', 'Thecc.09G266200' => 'tca', 'Thecc.09G266500' => 'tca', 'Thecc.09G266600' => 'tca', 'Thhalv10001885m.g' => 'esa', 'Thhalv10002309m.g' => 'esa', 'Thhalv10002813m.g' => 'esa', 'Thhalv10003019m.g' => 'esa', 'Thhalv10006570m.g' => 'esa', 'Thhalv10012448m.g' => 'esa', 'Thhalv10024224m.g' => 'esa', 'TPR.G25615' => 'tpr', 'TPR.G25616' => 'tpr', 'TPR.G25617' => 'tpr', 'TPR.G25619' => 'tpr', 'TPR.G29901' => 'tpr', 'TPR.G29902' => 'tpr', 'TPR.G6821' => 'tpr', 'TWI31G1418' => 'twi', 'TWI34G0448' => 'twi', 'TWI75G0994' => 'twi', 'TWI75G1069' => 'twi', 'TWI75G1174' => 'twi', 'unitig_736.g22904' => 'ugi', 'unitig_90.g27489' => 'ugi', 'vmacro04061' => 'vma', 'vmacro04203' => 'vma', 'VMungo0647G1351' => 'vmu', 'VMungo0647G1558' => 'vmu', 'VMungo1080G0609' => 'vmu', 'Zm00001eb021020' => 'zma', 'Zm00001eb027570' => 'zma', 'Zm00001eb060220' => 'zma', 'Zm00001eb060250' => 'zma', 'Zm00001eb060260' => 'zma', 'Zm00001eb205740' => 'zma', 'Zm00001eb213190' => 'zma', 'Zm00001eb300740' => 'zma', 'Zm00001eb305060' => 'zma', 'Zm00001eb363640' => 'zma', 'Zm00001eb396770' => 'zma', 'Zm00001eb411330' => 'zma', 'Zm00001eb433600' => 'zma' ) $gf_id = 'HOM05D001013' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001013' ) $data_identifier = 'HOM05D001013' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 7, 'aox' => (int) 2, 'arhy' => (int) 7, 'ath' => (int) 10, 'atr' => (int) 11, 'acertr' => (int) 6, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 11, 'bra' => (int) 8, 'can' => (int) 16, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 3, 'cbr' => (int) 2, 'ccan' => (int) 12, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 2, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 2, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 10, 'egr' => (int) 4, 'fan' => (int) 8, 'fve' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 6, 'han' => (int) 5, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 4, 'lonja' => (int) 19, 'lja' => (int) 4, 'lsa' => (int) 3, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 10, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 9, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 2, 'osa' => (int) 10, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 7, 'pvu' => (int) 3, 'ptr' => (int) 3, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 2, 'psa' => (int) 7, 'pso' => (int) 9, 'qlo' => (int) 2, 'rch' => (int) 2, 'rsi' => (int) 2, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 8, 'sed' => (int) 3, 'sgi' => (int) 23, 'sas' => (int) 6, 'shi' => (int) 3, 'smo' => (int) 7, 'sly' => (int) 12, 'spe' => (int) 9, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 7, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 2, 'vma' => (int) 2, 'vmu' => (int) 3, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433600' $species_info = array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) $local_species = 'zma' $disabled = '' $selected = '' $num_hits = (int) 1